Variant report

Variant	rs13179824
Chromosome Location	chr5:106622648-106622649
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs10051555	0.83[ASN][1000 genomes]
rs10052065	0.83[ASN][1000 genomes]
rs10058308	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10062445	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10065742	0.83[ASN][1000 genomes]
rs10077480	0.83[ASN][1000 genomes]
rs10077806	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10515369	0.92[ASN][1000 genomes]
rs10515372	1.00[EUR][1000 genomes]
rs11951446	0.92[ASN][1000 genomes]
rs13163748	1.00[EUR][1000 genomes]
rs13165897	0.91[EUR][1000 genomes]
rs13167605	1.00[EUR][1000 genomes]
rs13169680	1.00[EUR][1000 genomes]
rs13179809	1.00[EUR][1000 genomes]
rs13182806	0.92[ASN][1000 genomes]
rs13184636	0.93[EUR][1000 genomes]
rs13184643	1.00[EUR][1000 genomes]
rs13184806	0.86[EUR][1000 genomes]
rs13356705	0.83[ASN][1000 genomes]
rs13361441	0.83[ASN][1000 genomes]
rs1363312	0.92[ASN][1000 genomes]
rs17159621	0.92[ASN][1000 genomes]
rs17159641	0.88[EUR][1000 genomes]
rs17159693	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17159727	0.83[EUR][1000 genomes]
rs17159745	0.83[EUR][1000 genomes]
rs17159868	1.00[CHB][hapmap]
rs17343335	0.83[EUR][1000 genomes]
rs17343762	0.91[EUR][1000 genomes]
rs17401032	0.91[EUR][1000 genomes]
rs17402238	0.83[EUR][1000 genomes]
rs17403350	0.89[EUR][1000 genomes]
rs17412225	1.00[CHB][hapmap]
rs1895462	0.83[EUR][1000 genomes]
rs28458419	0.83[ASN][1000 genomes]
rs28665692	0.83[ASN][1000 genomes]
rs34319558	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34887030	0.92[ASN][1000 genomes]
rs35307227	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35709847	1.00[EUR][1000 genomes]
rs35740714	0.92[EUR][1000 genomes]
rs35775035	1.00[EUR][1000 genomes]
rs36179586	1.00[ASN][1000 genomes]
rs55849939	0.91[EUR][1000 genomes]
rs56852743	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60635486	0.89[EUR][1000 genomes]
rs6596736	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66460437	0.91[EUR][1000 genomes]
rs67878207	0.83[EUR][1000 genomes]
rs6897756	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72784111	0.83[EUR][1000 genomes]
rs72784113	0.83[EUR][1000 genomes]
rs73212446	0.92[ASN][1000 genomes]
rs73777824	0.83[ASN][1000 genomes]
rs765075	1.00[EUR][1000 genomes]
rs7701101	0.83[EUR][1000 genomes]
rs7711298	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7713055	0.92[ASN][1000 genomes]
rs7713807	0.83[ASN][1000 genomes]
rs7730647	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7730864	0.83[ASN][1000 genomes]
rs7735115	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9327996	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9327997	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1030118	chr5:106006097-106847949	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv823170	chr5:106326293-106673695	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1034276	chr5:106461538-106944163	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	nsv537851	chr5:106461538-106944163	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:106621200-106622800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr5:106621200-106623400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr5:106621600-106625600	Weak transcription	Pancreas	Pancrea
4	chr5:106621600-106626600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr5:106621800-106624600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr5:106621800-106636600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr5:106622000-106624800	Weak transcription	HMEC	breast
8	chr5:106622600-106623000	Enhancers	Stomach Mucosa	stomach

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